Lepeophtheirus salmonis

Overview
Full NameLepeophtheirus salmonis
GenusLepeophtheirus
Speciessalmonis
Common Namesalmon louse
AbbreviationL. salmonis

 

The salmon louse (Lepeophtheirus salmonis) is an ectoparasitic copepod feeding on skin, mucous and blood from salmonid hosts. Recently it was shown that L. salmonis infections in farmed fish induce epizootics in wild fish [1,2]. The life cycle of L.salmonis consists of 8 developmental stages separated by ecdysis [3,4] and after the final molt, females develop into mature adults that continuously produce eggs for life. The first free-living larvae (naupli I) hatch directly from egg-strings attached to adult females and all three larval stages (naupli I, naupli II and the infectious copepidid stage) can be transported by the ocean currents over large distances depending on hydrographical conditions [5]. After host settlement the infectious copepodids stage molt into chalimus. The two chalimus stages, all separated by molting, are anchored to the host by a frontal filament [6], which restricts the feeding area. However, in the succeeding pre-ad I and -II and adult stages the salmon louse can move unrestricted on the host surface resulting in increased virulence [7].

Image
Feature Summary
The following features are currently present for this organism
Feature TypeCount
exon60,033
protein26,409
gene13,135
mRNA13,129
tRNA344
snRNA83
snoRNA22
pseudogenic_tRNA17
miRNA9
rRNA8
Feature Browser
The following browser provides a quick view for new visitors. Use the searching mechanism to find specific features.
Feature NameUnique NameType
EMLSAG00000002176EMLSAG00000002176-684942gene
EMLSAG00000002177EMLSAG00000002177-684943gene
EMLSAG00000002178EMLSAG00000002178-684944gene
EMLSAG00000002179EMLSAG00000002179-684945gene
EMLSAG00000002180EMLSAG00000002180-684946gene
EMLSAG00000002181EMLSAG00000002181-684947gene
EMLSAG00000002182EMLSAG00000002182-684948gene
EMLSAG00000002183EMLSAG00000002183-684949gene
EMLSAG00000002184EMLSAG00000002184-684950gene
EMLSAG00000002185EMLSAG00000002185-684951gene
EMLSAG00000002186EMLSAG00000002186-684952gene
EMLSAG00000002187EMLSAG00000002187-684953gene
EMLSAG00000002188EMLSAG00000002188-684954gene
EMLSAG00000002189EMLSAG00000002189-684955gene
EMLSAG00000002190EMLSAG00000002190-684956gene
EMLSAG00000002191EMLSAG00000002191-684957gene
EMLSAG00000002192EMLSAG00000002192-684958gene
EMLSAG00000002193EMLSAG00000002193-684959gene
EMLSAG00000002194EMLSAG00000002194-684960gene
EMLSAG00000002195EMLSAG00000002195-684961gene
EMLSAG00000002196EMLSAG00000002196-684962gene
EMLSAG00000002197EMLSAG00000002197-684963gene
EMLSAG00000002198EMLSAG00000002198-684964gene
EMLSAG00000002199EMLSAG00000002199-684965gene
EMLSAG00000002200EMLSAG00000002200-684966gene

Pages

Downloads

The following annotation files are available for download:

Structural Annotations

L. salmonis assembly v1.0 scaffolds (FASTA format, zipped) LSalAtl2s.fasta.zip
L. salmonis protein coding gene sequences (FASTA format, zipped) Lepeophtheirus_salmonis_6.LSalAtl2s.19.pep.all.fa.zip
L. salmonis v1.0 protein coding and non-coding gene predictions (GFF3 format, zipped) Lepeophtheirus_salmonis_6.LSalAtl2s.19.final.gff3.zip
L. salmonis v1.0 only protein coding gene predictions (GFF3 format, zipped) Lepeophtheirus_salmonis_6.LSalAtl2s.19.1proteincoding-only.gff3.zip

Functional Annotations

Blast analysis

BlastP of all L. salmonis predicted peptides vs GenBank (NCBI NR) (various formats, gzip) asn1 [702 MB] | tab [39 MB] | xml [287 MB] | blast [368 MB]

[.asn1: blast archive, .tab: tabular text, .xml: XML format, .blast: default blast alignment] 

tab, xml, and blast are limited to 100 hits per query

 
Blastp of all predicted peptide sequences vs. SwissProt (various formats, gzip) asn1 [180 MB] | tab [23 MB] | xml [151 MB] | blast [178 MB]
   
Blastp of all L. salmonis predicted peptides vs GO (XML format, zipped) blastgo.zip

 

InterProScan, GO, and KEGG

   
InterProScan 5 analysis of L. salmonis peptides (XML format, zipped) Lepeophtheirus_salmonis_6.LSalAtl2s.19.pep.all.fa.xml.zip
InterProScan 5 analysis of L. salmonis peptides (tabular format, zipped) Lepeophtheirus_salmonis_6.LSalAtl2s.19.pep.all.fa.tsv.zip
InterProScan 5 analysis of L. salmonis peptides (gff3 format, zipped) Lepeophtheirus_salmonis_6.LSalAtl2s.19.pep.all.fa.gff3.zip
InterProScan 5 analysis of L. salmonis peptides (HTML pages, zipped) interprohtml.zip
KEGG analysis of L. salmonis peptide (KEGG hier format, tar.gz) hier.tar.gz
KEGG analysis of L. salmonis peptide (all KEGG maps, tar.gz) map.tar.gz
Gene Ontology (GO) assignments of L. salmonis peptides based on InterProScan GO terms (gaf format) Lsal.GO.gaf
GO-slims (generic) assignment of L. salmonis peptides based on InterProScan GO terms (gaf format) Lsal.GO-slim_generic.gaf
All RNA-seq data for each ENSEMBL-transcript as shown in the Genome Browser track. TMM/CPM normalized in CSV format.  cpmall.csv.zip